library(tidyverse)
library(ggplot2)
library(GGally)
estimated parameter values
aic.df <- read_csv("~/plots/all_data/aic.csv")
#add the replicate info
aic.df <- aic.df %>%
mutate(exp.field = paste0(str_split(cell.id, "_", simplify = T)[,2],"_",
str_split(cell.id, "_", simplify = T)[,3]),
colony = case_when(exp.field %in% c("20min_s3", "20min_s4") ~ "Replicate 1",
exp.field %in% c("20min_s5", "20min_s6") ~ "Replicate 2",
exp.field %in% c("20min_s7", "20min_s8" , "20min_s9") ~ "Replicate 3"))
aic.df <- aic.df %>%
mutate(colony = ifelse(degron == "stable" & red == "pup1-rfp",
case_when(exp.field %in% c("20min_s4", "20min_s5") ~ "Replicate 1",
exp.field %in% c("20min_s6", "20min_s7") ~ "Replicate 2",
exp.field %in% c("20min_s8", "20min_s9") ~ "Replicate 3"), colony))
# filter(value < 0.05)
Cellular attributes
pup1.cell.attr <- read_csv("~/plots/all_data/all_pup1_cell_attr.csv")
Rows: 19396 Columns: 29
── Column specification ──────────────────────────────────────────────────────────────────────────────────────────────
Delimiter: ","
chr (4): cell.id, degron, red, treatment
dbl (25): gfp.mean.bg.af.sub.new, gfp.sum.bg.af.sub, area, area.puncta, BB_B, BB_C, Elip_B, Elip_C, no.of.voxels, ...
ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
#pup1-RFP background
pup1.cell.attr <- pup1.cell.attr %>%
mutate(exp.field = paste0(str_split(cell.id, "_", simplify = T)[,2],"_",
str_split(cell.id, "_", simplify = T)[,3]),
colony = case_when(exp.field %in% c("20min_s3", "20min_s4") ~ "Replicate 1",
exp.field %in% c("20min_s5", "20min_s6") ~ "Replicate 2",
exp.field %in% c("20min_s7", "20min_s8" , "20min_s9") ~ "Replicate 3"))
pup1.cell.attr <- pup1.cell.attr %>%
mutate(colony = ifelse(degron == "stable" & red == "pup1-rfp",
case_when(exp.field %in% c("20min_s4", "20min_s5") ~ "Replicate 1",
exp.field %in% c("20min_s6", "20min_s7") ~ "Replicate 2",
exp.field %in% c("20min_s8", "20min_s9") ~ "Replicate 3"), colony))
#remooving the 40min and 60min experiments from the stable gfp experiments
pup1.cell.attr <- pup1.cell.attr %>%
mutate(exp = str_split(exp.field, "_", simplify = T)[,1]) %>%
filter(exp == "20min")
pup1.cell.attr <- read_csv("~/plots/pup1-rfp-gfp-decay/4-28-21-8hrGFP/data/gfp_stable_filtered.csv") %>%
filter(image.no == 1) %>%
dplyr::select(cell.id, gfpSumBgAFsub) %>%
mutate(cell.id = paste0(cell.id,"_","stable_pup1-rfp_none")) %>%
dplyr::rename("gfp.sum.bg.af.sub" = "gfpSumBgAFsub") %>%
left_join(pup1.cell.attr %>%
filter(degron == "stable") %>%
dplyr::select(-gfp.sum.bg.af.sub),., by = "cell.id") %>%
bind_rows(pup1.cell.attr %>%
filter(degron != "stable"),.)
multiple.pup1 <- pup1.cell.attr %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta)) %>%
filter(rfp.mean.bg.sub.puncta > 0) %>%
group_by(cell.id) %>%
tally() %>%
filter(n>1)
pup1.cell.attr<- pup1.cell.attr %>%
group_by(cell.id) %>%
mutate(rfp.mean.bg.sub.puncta = ifelse(cell.id %in% multiple.pup1$cell.id , mean(rfp.mean.bg.sub.puncta), rfp.mean.bg.sub.puncta )) %>%
distinct(cell.id, .keep_all = TRUE)
#proteasome inhibition experiments
protInhi.attr <- read_csv("~/plots/all_data/all_mg135_attr.csv") %>%
rename("cell.id" = "unique.trackID") %>%
filter(timepoint == 1) %>%
mutate(cell.id = paste0(cell.id ,"_",degron,"_",red,"_",treatment)) %>%
mutate(exp.field = paste0(str_split(cell.id, "_", simplify = T)[,2],"_",
str_split(cell.id, "_", simplify = T)[,3]),
colony = case_when(exp.field %in% c("20min_s3", "20min_s4") ~ "Replicate 1",
exp.field %in% c("20min_s5", "20min_s6") ~ "Replicate 2",
exp.field %in% c("20min_s7", "20min_s8" , "20min_s9") ~ "Replicate 3"))
Rows: 9142 Columns: 52
── Column specification ──────────────────────────────────────────────────────────────────────────────────────────────
Delimiter: ","
chr (8): unique.trackID, experiment, exp.field, field, sample, treatment, degron, red
dbl (44): gfp.mean.bg.af.sub.new, time, timepoint, image.no, ln.gfp, image, ln.gfp.dif, area, trackID, Elip_B, Eli...
ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
multiple.proInh <- protInhi.attr %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta)) %>%
filter(rfp.mean.bg.sub.puncta > 0) %>%
group_by(cell.id) %>%
tally() %>%
filter(n>1)
protInhi.attr <- protInhi.attr %>%
group_by(cell.id) %>%
mutate(rfp.mean.bg.sub.puncta = ifelse(cell.id %in% multiple.proInh$cell.id , mean(rfp.mean.bg.sub.puncta), rfp.mean.bg.sub.puncta),
rfp.sum.bg.sub.puncta = ifelse(cell.id %in% multiple.proInh$cell.id, sum(rfp.mean.bg.sub.puncta), rfp.sum.bg.sub.puncta)) %>%
distinct(cell.id, .keep_all = TRUE)
pup1.proInhi.attr <- pup1.cell.attr %>%
bind_rows(.,protInhi.attr %>%
dplyr::select(-time,
-timepoint,
-image.no,
-ln.gfp,
-ln.gfp.dif,
-trackID,
-gfp.intensity.center,
-gfp.int.mean,
-gfp.int.median,
-gfp.int.sum,
-no.of.triangles,
-field,
-time.dif.gfp,
-real.time.gfp,
-sample,
-avg.gfp.bg,
-Min_gfp,
-gfp.mean.bg.sub,
-value,
-t80,
-t95,
-threshold,
-threshold_95,
-gfp.mean.bg.af.sub,
-threshold_80,
-Mean_gfp,
-image,
-experiment,
-gfp.sum.bg.sub))
#selecting the dy values from the 2-parameter maturation model
# dy.pup1.rep1.all <- aic.df %>%
# filter(red == "pup1-rfp", treatment == "none", degron %in% c("cln2.3","mODC.2", "stable.2") ) %>%
# filter(ifelse(degron == "stable.2", dy < 0.1, dy < 0.5)) %>%
# group_by(cell.id) %>%
# # filter(model == "exponential")
# filter(ifelse(degron == "mODC.2", model == "dy.dm", model == "exponential")) %>%
# mutate(dm = ifelse(is.na(dm), Inf, dm)) %>%
# filter( dm > 0.00001)
#
# dy.pup1.rep1 <- aic.df %>%
# filter(red == "pup1-rfp", treatment == "none", degron %in% c("cln2.3","mODC.2", "stable.2") ) %>%
# filter(ifelse(degron == "stable.2", dy < 0.1, dy < 0.5)) %>%
# group_by(cell.id) %>%
# filter(model == "exponential")
# # filter(ifelse(degron == "mODC.2", model == "dy.dm", model == "exponential")) %>%
# # mutate(dm = ifelse(is.na(dm), Inf, dm)) %>%
# # filter( dm > 0.00001)
#only dy.dm
dy.pup1.rep1.mat <- aic.df %>%
filter(red == "pup1-rfp" ) %>%
filter(ifelse(degron %in% c( "stable","stable.3","stable.2"), dy < 0.1, dy < 0.5)) %>%
group_by(cell.id) %>%
filter(model == "dy.dm") %>%
mutate(dm = ifelse(is.na(dm), Inf, dm)) %>%
filter( dm > 0.00001)
#with exponential model for all the GFPs
fig2.df <- dy.pup1.rep1 %>%
left_join(.,pup1.cell.attr %>%
filter(red == "pup1-rfp", treatment == "none", degron %in% c("cln2.3","mODC.2", "stable.2")), by = c("cell.id","treatment","degron","red","colony","exp.field"))
multiple.pup1 <- fig2.df %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta)) %>%
filter(rfp.mean.bg.sub.puncta > 0) %>% group_by(cell.id) %>% tally() %>% filter(n>1)
fig2.df <- fig2.df %>%
group_by(cell.id) %>%
mutate(rfp.mean.bg.sub.puncta = ifelse(cell.id %in% multiple.pup1$cell.id , mean(rfp.mean.bg.sub.puncta), rfp.mean.bg.sub.puncta )) %>%
distinct(cell.id, .keep_all = TRUE)
#with dy.dm model for mODC and exponential for cln2 and canonical GFP
fig2.df.all <- dy.pup1.rep1.all %>%
left_join(.,pup1.cell.attr %>%
filter(red == "pup1-rfp", treatment == "none", degron %in% c("cln2.3","mODC.2", "stable.2")), by = c("cell.id","treatment","degron","red","colony","exp.field"))
multiple.pup1 <- fig2.df.all %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta)) %>%
filter(rfp.mean.bg.sub.puncta > 0) %>% group_by(cell.id) %>% tally() %>% filter(n>1)
fig2.df.all <- fig2.df.all %>%
group_by(cell.id) %>%
mutate(rfp.mean.bg.sub.puncta = ifelse(cell.id %in% multiple.pup1$cell.id , mean(rfp.mean.bg.sub.puncta), rfp.mean.bg.sub.puncta )) %>%
distinct(cell.id, .keep_all = TRUE)
#with dy.dm model for all the exp
fig2.df.mat <- dy.pup1.rep1.mat %>%
left_join(.,pup1.cell.attr %>%
filter(red == "pup1-rfp"), by = c("cell.id","treatment","degron","red","colony","exp.field"))
#filter for SSE < 0.05
fig2.df.2 <- fig2.df %>% filter(value< 0.05)
fig2.df.all.2 <- fig2.df.all %>% filter(value< 0.05)
fig2.df.mat <- fig2.df.mat %>% filter(value< 0.05)
#customed ggpairs function
my_fn <- function(data, mapping, ...){
p <- ggplot(data = data, mapping = mapping) +
ggpointdensity::geom_pointdensity(size = 0.1)+
# geom_point(size = 0.1, alpha = 0.1) +
geom_smooth(method="lm", color="red4", se = FALSE, lwd = 0.5)
p
}
ggpairs.custome <- function(df){
ggpairs.plot <- df %>%
mutate(colony = case_when(colony == "Replicate 1" ~ "1",
colony == "Replicate 2" ~ "2",
colony == "Replicate 3" ~ "3")) %>%
ungroup() %>%
select(dm,
# colony,
gfp.mean.bg.af.sub.new,
# gfp.sum.bg.af.sub,
rfp.mean.bg.sub.puncta,
# rfp.sum.bg.sub.puncta,
dapi.sum.bg.sub.puncta,
area,
# volume,
# no.of.voxels,
# area.puncta,
elipe_shape,
# dy,#removed t.half and added dy
t.half) %>%
rename("GFP" = "gfp.mean.bg.af.sub.new",
# "GFP.sum" = "gfp.sum.bg.af.sub",
"Pup1- tDimer" = "rfp.mean.bg.sub.puncta",
# "rfp.sum" = "rfp.sum.bg.sub.puncta",
"Dapi" = "dapi.sum.bg.sub.puncta",
"Area" = "area",
# "voxels" = "no.of.voxels",
# "Nuclear Size" = "area.puncta",
"Shape" = "elipe_shape",
# "rate of decay" = "dy",
"Half-Life [min.]" = "t.half",
"Rate of Maturation" = "dm") %>%
# "Replicate" = "colony") %>%
ggpairs(.,
# legend = 1,
columns = 1:7,
# mapping = ggplot2::aes(color = Replicate),
lower = list(continuous = my_fn,
discrete = "blank",
combo="blank"),
diag = list(discrete="barDiag",
continuous = wrap("densityDiag", alpha=0.5 )),
upper = list(discrete= wrap("barDiag" , outlier.size = 0.5),
combo = wrap("box_no_facet", outlier.size = 0.5),
continuous = wrap("cor", display_grid = FALSE, size = 2.5 , method = "pearson", color = "red4")),
labeller = label_wrap_gen(width = 2, multi_line = TRUE),
proportions = c())+
theme_bw()+
theme(text = element_text(size = 6),
legend.position = "bottom",
panel.grid.major = element_blank(),
axis.text.x = element_text(angle = 30, hjust = 1))
# scale_fill_brewer( palette = "Set2")+
# scale_color_brewer(palette = "Set2")+
return(ggpairs.plot)
}
mODC correlations based on the dm values
#dm <1
fig2.df.all %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
dm = ifelse(is.na(dm), Inf, dm),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy) %>%
filter(degron == "mODC.2",
rfp.mean.bg.sub.puncta > 0,
dm < 1) %>%
mutate(colony = case_when(colony == "Replicate 1" ~ "1",
colony == "Replicate 2" ~ "2",
colony == "Replicate 3" ~ "3")) %>%
ungroup() %>%
select(colony,
t.half, gfp.mean.bg.af.sub.new, rfp.mean.bg.sub.puncta, dapi.sum.bg.sub.puncta, area, elipe_shape) %>%
rename("gfp.m" = "gfp.mean.bg.af.sub.new",
"pup1" = "rfp.mean.bg.sub.puncta",
"dapi" = "dapi.sum.bg.sub.puncta") %>%
ggpairs(.,legend = 1,
columns = 1:7,
mapping = ggplot2::aes(color = colony),
lower = list(continuous = wrap("smooth", se = F, alpha = 0.5, size = 0.1) ),
upper = list(continuous = wrap("cor", size = 2.5)))+
theme(text = element_text(size = 8),
legend.position = "bottom")
#dm > 1
fig2.df.all %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
dm = ifelse(is.na(dm), Inf, dm),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy) %>%
filter(degron == "mODC.2",
rfp.mean.bg.sub.puncta > 0,
dm > 1) %>%
mutate(colony = case_when(colony == "Replicate 1" ~ "1",
colony == "Replicate 2" ~ "2",
colony == "Replicate 3" ~ "3")) %>%
ungroup() %>%
select(colony,
t.half, gfp.mean.bg.af.sub.new, rfp.mean.bg.sub.puncta, dapi.sum.bg.sub.puncta, area, elipe_shape) %>%
rename("gfp.m" = "gfp.mean.bg.af.sub.new",
"pup1" = "rfp.mean.bg.sub.puncta",
"dapi" = "dapi.sum.bg.sub.puncta") %>%
ggpairs(.,legend = 1,
columns = 1:7,
mapping = ggplot2::aes(color = colony),
lower = list(continuous = wrap("smooth", se = F, alpha = 0.5, size = 0.1) ),
upper = list(continuous = wrap("cor", size = 2.5)))+
theme(text = element_text(size = 8),
legend.position = "bottom")
df with filtration on SSE < 0.05
modc.ggp.plt
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#without the SSE <0.05 filter for mODC
modc.ggp.plt <- fig2.df.mat %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy) %>%
filter(degron == "mODC.2",rfp.mean.bg.sub.puncta > 0) %>%
ggpairs.custome(.)+
ggtitle("Single-Cell Correlations of Various Cellular Features of GFP-mODC strain")
# fig2.df.all.2 %>%
# mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
# rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
# elipe_shape = Elip_B/Elip_C,
# t.half = log(2)/dy) %>%
# filter(degron == "mODC.2",rfp.mean.bg.sub.puncta > 0) %>%
# ggpairs.custome(.)
modc.ggp.plt
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plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 2s
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 2s
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 2s
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 1s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s
plot: [7,7] [===================================================================================================================================]100% est: 0s
#with proteasome inhibitors
trt.list <- fig2.df.mat %>%
filter(dm > 0.000015) %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy,
dm = log10(dm)) %>%
filter(rfp.mean.bg.sub.puncta > 0, treatment != "none") %>% split(.$treatment)
lapply(trt.list, function(a){
a %>%
ggpairs.custome(.)+
ggtitle(a$treatment[1])
})
$`1uM`
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 1s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 2s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 2s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 2s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 1s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 1s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 0s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
$`2.5uM`
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 1s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 2s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 2s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 2s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 1s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 1s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 0s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
$`50uM`
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 1s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 2s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 2s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 2s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 1s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 1s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 0s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
$`5uM`
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 1s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 2s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 2s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 2s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 1s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 1s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 0s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
$dmso1
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 2s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 3s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 3s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 3s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 3s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 2s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 2s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,3] [==================================================================================>------------------------------------------------] 63% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,4] [=====================================================================================>---------------------------------------------] 65% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,5] [=======================================================================================>-------------------------------------------] 67% est: 1s
plot: [5,6] [==========================================================================================>----------------------------------------] 69% est: 1s
plot: [5,7] [=============================================================================================>-------------------------------------] 71% est: 1s
plot: [6,1] [===============================================================================================>-----------------------------------] 73% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,2] [==================================================================================================>--------------------------------] 76% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,3] [=====================================================================================================>-----------------------------] 78% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,4] [=======================================================================================================>---------------------------] 80% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,5] [==========================================================================================================>------------------------] 82% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [6,6] [=============================================================================================================>---------------------] 84% est: 1s
plot: [6,7] [===============================================================================================================>-------------------] 86% est: 1s
plot: [7,1] [==================================================================================================================>----------------] 88% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,4] [==========================================================================================================================>--------] 94% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,5] [=============================================================================================================================>-----] 96% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
$dmso2
plot: [1,1] [==>--------------------------------------------------------------------------------------------------------------------------------] 2% est: 0s
plot: [1,2] [====>------------------------------------------------------------------------------------------------------------------------------] 4% est: 1s
plot: [1,3] [=======>---------------------------------------------------------------------------------------------------------------------------] 6% est: 2s
plot: [1,4] [==========>------------------------------------------------------------------------------------------------------------------------] 8% est: 2s
plot: [1,5] [============>----------------------------------------------------------------------------------------------------------------------] 10% est: 2s
plot: [1,6] [===============>-------------------------------------------------------------------------------------------------------------------] 12% est: 2s
plot: [1,7] [==================>----------------------------------------------------------------------------------------------------------------] 14% est: 2s
plot: [2,1] [====================>--------------------------------------------------------------------------------------------------------------] 16% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [2,2] [=======================>-----------------------------------------------------------------------------------------------------------] 18% est: 2s
plot: [2,3] [==========================>--------------------------------------------------------------------------------------------------------] 20% est: 2s
plot: [2,4] [============================>------------------------------------------------------------------------------------------------------] 22% est: 2s
plot: [2,5] [===============================>---------------------------------------------------------------------------------------------------] 24% est: 2s
plot: [2,6] [==================================>------------------------------------------------------------------------------------------------] 27% est: 2s
plot: [2,7] [====================================>----------------------------------------------------------------------------------------------] 29% est: 2s
plot: [3,1] [=======================================>-------------------------------------------------------------------------------------------] 31% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,2] [==========================================>----------------------------------------------------------------------------------------] 33% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [3,3] [============================================>--------------------------------------------------------------------------------------] 35% est: 2s
plot: [3,4] [===============================================>-----------------------------------------------------------------------------------] 37% est: 2s
plot: [3,5] [==================================================>--------------------------------------------------------------------------------] 39% est: 2s
plot: [3,6] [====================================================>------------------------------------------------------------------------------] 41% est: 2s
plot: [3,7] [=======================================================>---------------------------------------------------------------------------] 43% est: 2s
plot: [4,1] [==========================================================>------------------------------------------------------------------------] 45% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,2] [============================================================>----------------------------------------------------------------------] 47% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,3] [===============================================================>-------------------------------------------------------------------] 49% est: 2s `geom_smooth()` using formula 'y ~ x'
plot: [4,4] [==================================================================>----------------------------------------------------------------] 51% est: 1s
plot: [4,5] [=====================================================================>-------------------------------------------------------------] 53% est: 1s
plot: [4,6] [=======================================================================>-----------------------------------------------------------] 55% est: 1s
plot: [4,7] [==========================================================================>--------------------------------------------------------] 57% est: 1s
plot: [5,1] [=============================================================================>-----------------------------------------------------] 59% est: 1s `geom_smooth()` using formula 'y ~ x'
plot: [5,2] [===============================================================================>---------------------------------------------------] 61% est: 1s `geom_smooth()` using formula 'y ~ x'
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plot: [6,6] [=============================================================================================================>---------------------] 84% est: 0s
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plot: [7,1] [==================================================================================================================>----------------] 88% est: 0s `geom_smooth()` using formula 'y ~ x'
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plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
for CLN2-GFP
cln2.ggp.plt.comb <- fig2.df.mat %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy,
dm = log10(dm)) %>%
filter(degron %in% c("cln2.3","cln2.4"), rfp.mean.bg.sub.puncta > 0) %>%
mutate(degron = ifelse(degron %in% c("cln2.3","cln2.4"), "GFP-CLN2", degron)) %>%
ggpairs.custome(.)+
ggtitle("Single-Cell Correlations of Various Cellular Features of GFP-CLN2")
cln2.ggp.plt.comb
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plot: [7,2] [=====================================================================================================================>-------------] 90% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,3] [=======================================================================================================================>-----------] 92% est: 0s `geom_smooth()` using formula 'y ~ x'
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plot: [7,6] [===============================================================================================================================>---] 98% est: 0s `geom_smooth()` using formula 'y ~ x'
plot: [7,7] [===================================================================================================================================]100% est: 0s
The relationship does’nt change when you use dy from dy.dm or exponential model for the CLN2.3 experiment
stable.ggp.plt.comb <- fig2.df.mat %>%
mutate(dapi.mean.bg.sub.puncta = ifelse(is.na(dapi.mean.bg.sub.puncta), 0, dapi.mean.bg.sub.puncta) ,
rfp.mean.bg.sub.puncta = ifelse(is.na(rfp.mean.bg.sub.puncta), 0 , rfp.mean.bg.sub.puncta),
elipe_shape = Elip_B/Elip_C,
t.half = log(2)/dy,
dm = log10(dm)) %>%
filter(degron %in% c("stable.2","stable.3"), rfp.mean.bg.sub.puncta > 0) %>%
mutate(degron = ifelse(degron %in% c("stable.2","stable.3"), "yeGFP", degron)) %>%
ggpairs.custome(.)+
ggtitle("Single-Cell Correlations of Various Cellular Features of yeGFP")
stable.ggp.plt.comb
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#supplemental figure 4
ggsave(plot = stable.ggp.plt.1, path = "~/plots/paper1/figures/fig_2/supplemental_figs/", filename = "figs4c.pdf", width = 8, height = 5)
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ggsave(plot = stable.ggp.plt.1, path = "~/plots/paper1/figures/fig_2/supplemental_figs/", filename = "figs4c.png", width = 8, height = 5)
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